Results#

Data associated with the results presented here can be found at: https://github.com/courtois-neuromod/anat-processing/releases.

Brain#

This section presents results of brain MRI data. Below are quantitative T1 values computed using the MP2RAGE and the MTsat methods. These values are averaged within the gray matter and white matter masks.

Gray matter qMRI#

Code imports#

# Python imports 
from IPython.display import clear_output
from pathlib import Path
import numpy as np
import pandas as pd

# Import custom tools
from tools.data import Data
from tools.plot import Plot

Download data#

data_type = 'brain'
release_version = 'latest'

dataset = Data(data_type)
dataset.download(release_version)

Load data and plot it#

dataset.load()
fig_gm = Plot(dataset, plot_name = 'new-fig-2')

fig_gm.title = 'Brain gray matter qMRI microstructure'
# If you're running this notebook in a Jupyter Notebook (eg, on MyBinder), change 'jupyter-book' to 'notebook'
fig_gm.display('jupyter-book', tissue = 'GM')
[[1.4885, 1.4651, 1.285, -100], [1.4674, 1.4598, 1.4625, 1.4542], [1.4929, 1.4977, -100, 1.4964], [1.315, 1.2597, 1.2551, -100], [1.4773, 1.4801, -100, -100], [-100, -100, -100, 1.3065]]
MP2RAGE
[[1.7582, 1.7805, 1.5235, -100], [1.8387, 1.7777, 1.6814, 1.6291], [1.7867, 1.83, -100, 1.7999], [1.4853, 1.3929, 1.4778, -100], [1.9455, 1.8808, -100, -100], [-100, -100, -100, 1.5384]]
MTS
[[45.3931, 45.6771, 38.2974, -100], [46.4224, 46.9693, 47.0274, 46.8317], [45.5349, 45.5003, -100, 46.3153], [40.8195, 39.712, 41.6998, -100], [46.8891, 46.6286, -100, -100], [-100, -100, -100, 40.6206]]
MTR
[[2.6791, 3.2149, 8.3607, -100], [2.1697, 2.4692, 4.4383, 3.8181], [1.9555, 1.9462, -100, 2.3336], [4.6358, 4.9702, 12.5801, -100], [2.2007, 2.1552, -100, -100], [-100, -100, -100, 8.5125]]
MTsat
[[1.4885, 1.4651, 1.285, -100], [1.4674, 1.4598, 1.4625, 1.4542], [1.4929, 1.4977, -100, 1.4964], [1.315, 1.2597, 1.2551, -100], [1.4773, 1.4801, -100, -100], [-100, -100, -100, 1.3065]]
[[1.7582, 1.7805, 1.5235, -100], [1.8387, 1.7777, 1.6814, 1.6291], [1.7867, 1.83, -100, 1.7999], [1.4853, 1.3929, 1.4778, -100], [1.9455, 1.8808, -100, -100], [-100, -100, -100, 1.5384]]
[[45.3931, 45.6771, 38.2974, -100], [46.4224, 46.9693, 47.0274, 46.8317], [45.5349, 45.5003, -100, 46.3153], [40.8195, 39.712, 41.6998, -100], [46.8891, 46.6286, -100, -100], [-100, -100, -100, 40.6206]]
[[2.6791, 3.2149, 8.3607, -100], [2.1697, 2.4692, 4.4383, 3.8181], [1.9555, 1.9462, -100, 2.3336], [4.6358, 4.9702, 12.5801, -100], [2.2007, 2.1552, -100, -100], [-100, -100, -100, 8.5125]]
[[   1.4885    1.4651    1.285  -100.    ]
 [   1.4674    1.4598    1.4625    1.4542]
 [   1.4929    1.4977 -100.        1.4964]
 [   1.315     1.2597    1.2551 -100.    ]
 [   1.4773    1.4801 -100.     -100.    ]
 [-100.     -100.     -100.        1.3065]
 [   1.7582    1.7805    1.5235 -100.    ]
 [   1.8387    1.7777    1.6814    1.6291]
 [   1.7867    1.83   -100.        1.7999]
 [   1.4853    1.3929    1.4778 -100.    ]
 [   1.9455    1.8808 -100.     -100.    ]
 [-100.     -100.     -100.        1.5384]]
[[   1.4885    1.4651    1.285  -100.    ]
 [   1.4674    1.4598    1.4625    1.4542]
 [   1.4929    1.4977 -100.        1.4964]
 [   1.315     1.2597    1.2551 -100.    ]
 [   1.4773    1.4801 -100.     -100.    ]
 [-100.     -100.     -100.        1.3065]
 [   1.7582    1.7805    1.5235 -100.    ]
 [   1.8387    1.7777    1.6814    1.6291]
 [   1.7867    1.83   -100.        1.7999]
 [   1.4853    1.3929    1.4778 -100.    ]
 [   1.9455    1.8808 -100.     -100.    ]
 [-100.     -100.     -100.        1.5384]]
[[45.3931, 45.6771, 38.2974, -100], [46.4224, 46.9693, 47.0274, 46.8317], [45.5349, 45.5003, -100, 46.3153], [40.8195, 39.712, 41.6998, -100], [46.8891, 46.6286, -100, -100], [-100, -100, -100, 40.6206]]
[[45.3931, 45.6771, 38.2974, -100], [46.4224, 46.9693, 47.0274, 46.8317], [45.5349, 45.5003, -100, 46.3153], [40.8195, 39.712, 41.6998, -100], [46.8891, 46.6286, -100, -100], [-100, -100, -100, 40.6206]]
[[2.6791, 3.2149, 8.3607, -100], [2.1697, 2.4692, 4.4383, 3.8181], [1.9555, 1.9462, -100, 2.3336], [4.6358, 4.9702, 12.5801, -100], [2.2007, 2.1552, -100, -100], [-100, -100, -100, 8.5125]]
[[2.6791, 3.2149, 8.3607, -100], [2.1697, 2.4692, 4.4383, 3.8181], [1.9555, 1.9462, -100, 2.3336], [4.6358, 4.9702, 12.5801, -100], [2.2007, 2.1552, -100, -100], [-100, -100, -100, 8.5125]]
[[   1.4885    1.4651    1.285  -100.    ]
 [   1.4674    1.4598    1.4625    1.4542]
 [   1.4929    1.4977 -100.        1.4964]
 [   1.315     1.2597    1.2551 -100.    ]
 [   1.4773    1.4801 -100.     -100.    ]
 [-100.     -100.     -100.        1.3065]
 [   1.7582    1.7805    1.5235 -100.    ]
 [   1.8387    1.7777    1.6814    1.6291]
 [   1.7867    1.83   -100.        1.7999]
 [   1.4853    1.3929    1.4778 -100.    ]
 [   1.9455    1.8808 -100.     -100.    ]
 [-100.     -100.     -100.        1.5384]]
[[   1.4885    1.4651    1.285  -100.    ]
 [   1.4674    1.4598    1.4625    1.4542]
 [   1.4929    1.4977 -100.        1.4964]
 [   1.315     1.2597    1.2551 -100.    ]
 [   1.4773    1.4801 -100.     -100.    ]
 [-100.     -100.     -100.        1.3065]
 [   1.7582    1.7805    1.5235 -100.    ]
 [   1.8387    1.7777    1.6814    1.6291]
 [   1.7867    1.83   -100.        1.7999]
 [   1.4853    1.3929    1.4778 -100.    ]
 [   1.9455    1.8808 -100.     -100.    ]
 [-100.     -100.     -100.        1.5384]]

White matter qMRI#

fig_wm = Plot(dataset, plot_name = 'new-fig-4')

fig_wm.title = 'Brain white matter qMRI microstructure'
# If you're running this notebook in a Jupyter Notebook (eg, on MyBinder), change 'jupyter-book' to 'notebook'
fig_wm.display('jupyter-book', tissue = 'WM')
[[0.94136, 0.9462, 1.0346, -100], [0.90359, 0.90871, 0.90185, 0.90232], [0.88612, 0.88218, -100, 0.88721], [0.97833, 0.9795, 0.968, -100], [0.91238, 0.90486, -100, -100], [-100, -100, -100, 0.96392]]
MP2RAGE
[[1.0207, 1.0348, 1.0475, -100], [1.021, 1.0044, 0.99252, 0.96173], [0.97915, 0.9999, -100, 1.036], [1.0128, 0.96615, 1.028, -100], [1.0388, 1.0421, -100, -100], [-100, -100, -100, 1.0122]]
MTS
[[54.0544, 54.1103, 53.2875, -100], [54.2992, 54.1307, 54.2658, 54.3671], [54.5125, 54.7791, -100, 55.1095], [53.5777, 53.4147, 54.3775, -100], [54.8262, 54.5027, -100, -100], [-100, -100, -100, 53.0978]]
MTR
[[5.0026, 4.7489, 8.4598, -100], [4.3271, 4.3393, 4.5628, 5.1863], [4.4926, 4.3475, -100, 4.4228], [5.9779, 5.9091, 6.6724, -100], [5.1489, 4.3173, -100, -100], [-100, -100, -100, 8.5528]]
MTsat
[[0.94136, 0.9462, 1.0346, -100], [0.90359, 0.90871, 0.90185, 0.90232], [0.88612, 0.88218, -100, 0.88721], [0.97833, 0.9795, 0.968, -100], [0.91238, 0.90486, -100, -100], [-100, -100, -100, 0.96392]]
[[1.0207, 1.0348, 1.0475, -100], [1.021, 1.0044, 0.99252, 0.96173], [0.97915, 0.9999, -100, 1.036], [1.0128, 0.96615, 1.028, -100], [1.0388, 1.0421, -100, -100], [-100, -100, -100, 1.0122]]
[[54.0544, 54.1103, 53.2875, -100], [54.2992, 54.1307, 54.2658, 54.3671], [54.5125, 54.7791, -100, 55.1095], [53.5777, 53.4147, 54.3775, -100], [54.8262, 54.5027, -100, -100], [-100, -100, -100, 53.0978]]
[[5.0026, 4.7489, 8.4598, -100], [4.3271, 4.3393, 4.5628, 5.1863], [4.4926, 4.3475, -100, 4.4228], [5.9779, 5.9091, 6.6724, -100], [5.1489, 4.3173, -100, -100], [-100, -100, -100, 8.5528]]
[[   0.94136    0.9462     1.0346  -100.     ]
 [   0.90359    0.90871    0.90185    0.90232]
 [   0.88612    0.88218 -100.         0.88721]
 [   0.97833    0.9795     0.968   -100.     ]
 [   0.91238    0.90486 -100.      -100.     ]
 [-100.      -100.      -100.         0.96392]
 [   1.0207     1.0348     1.0475  -100.     ]
 [   1.021      1.0044     0.99252    0.96173]
 [   0.97915    0.9999  -100.         1.036  ]
 [   1.0128     0.96615    1.028   -100.     ]
 [   1.0388     1.0421  -100.      -100.     ]
 [-100.      -100.      -100.         1.0122 ]]
[[   0.94136    0.9462     1.0346  -100.     ]
 [   0.90359    0.90871    0.90185    0.90232]
 [   0.88612    0.88218 -100.         0.88721]
 [   0.97833    0.9795     0.968   -100.     ]
 [   0.91238    0.90486 -100.      -100.     ]
 [-100.      -100.      -100.         0.96392]
 [   1.0207     1.0348     1.0475  -100.     ]
 [   1.021      1.0044     0.99252    0.96173]
 [   0.97915    0.9999  -100.         1.036  ]
 [   1.0128     0.96615    1.028   -100.     ]
 [   1.0388     1.0421  -100.      -100.     ]
 [-100.      -100.      -100.         1.0122 ]]
[[54.0544, 54.1103, 53.2875, -100], [54.2992, 54.1307, 54.2658, 54.3671], [54.5125, 54.7791, -100, 55.1095], [53.5777, 53.4147, 54.3775, -100], [54.8262, 54.5027, -100, -100], [-100, -100, -100, 53.0978]]
[[54.0544, 54.1103, 53.2875, -100], [54.2992, 54.1307, 54.2658, 54.3671], [54.5125, 54.7791, -100, 55.1095], [53.5777, 53.4147, 54.3775, -100], [54.8262, 54.5027, -100, -100], [-100, -100, -100, 53.0978]]
[[5.0026, 4.7489, 8.4598, -100], [4.3271, 4.3393, 4.5628, 5.1863], [4.4926, 4.3475, -100, 4.4228], [5.9779, 5.9091, 6.6724, -100], [5.1489, 4.3173, -100, -100], [-100, -100, -100, 8.5528]]
[[5.0026, 4.7489, 8.4598, -100], [4.3271, 4.3393, 4.5628, 5.1863], [4.4926, 4.3475, -100, 4.4228], [5.9779, 5.9091, 6.6724, -100], [5.1489, 4.3173, -100, -100], [-100, -100, -100, 8.5528]]
[[   0.94136    0.9462     1.0346  -100.     ]
 [   0.90359    0.90871    0.90185    0.90232]
 [   0.88612    0.88218 -100.         0.88721]
 [   0.97833    0.9795     0.968   -100.     ]
 [   0.91238    0.90486 -100.      -100.     ]
 [-100.      -100.      -100.         0.96392]
 [   1.0207     1.0348     1.0475  -100.     ]
 [   1.021      1.0044     0.99252    0.96173]
 [   0.97915    0.9999  -100.         1.036  ]
 [   1.0128     0.96615    1.028   -100.     ]
 [   1.0388     1.0421  -100.      -100.     ]
 [-100.      -100.      -100.         1.0122 ]]
[[   0.94136    0.9462     1.0346  -100.     ]
 [   0.90359    0.90871    0.90185    0.90232]
 [   0.88612    0.88218 -100.         0.88721]
 [   0.97833    0.9795     0.968   -100.     ]
 [   0.91238    0.90486 -100.      -100.     ]
 [-100.      -100.      -100.         0.96392]
 [   1.0207     1.0348     1.0475  -100.     ]
 [   1.021      1.0044     0.99252    0.96173]
 [   0.97915    0.9999  -100.         1.036  ]
 [   1.0128     0.96615    1.028   -100.     ]
 [   1.0388     1.0421  -100.      -100.     ]
 [-100.      -100.      -100.         1.0122 ]]

Spinal cord#

Spinal cord cross-sectional area#

Download data#

data_type = 'spine'
release_version = 'latest'

dataset = Data(data_type)
dataset.download(release_version)

Load data plot it#

dataset.load()

fig_spine = Plot(dataset, plot_name = 'new-fig')

fig_spine.title = 'Spinal cord CSA [T<sub>1</sub>w/T<sub>2</sub>w]'
# If you're running this notebook in a Jupyter Notebook (eg, on MyBinder), change 'jupyter-book' to 'notebook'
fig_spine.display('jupyter-book', tissue = 'WM')
[[67.68043139343541, 67.51192950187651, 64.10906141748492, -100], [66.45528870474881, 73.68810861718586, 73.90549406140528, 69.40567255226951], [59.92768078307679, 60.228813886890336, 60.62168402306773, 59.91566547643056], [-100, 59.71785704128032, 61.9692210118123, -100], [53.01001344464832, 64.7179719462451, -100, -100], [62.953113761654, 64.82356608772385, 62.99080203229852, 63.92581015491735]]
[[80.31287669419582, 80.7684228622334, 80.77416179502649, -100], [92.72412473358578, 94.58771243953994, 92.66689980123054, 93.57146821082088], [73.61777268131331, 72.98017043131877, 70.59364812603286, 71.2682278628924], [-100, 74.7323749938961, 75.00564528070014, -100], [70.77995321551784, 74.85780653908817, -100, -100], [72.95826654799964, 73.12988138337275, 73.89480466120321, 72.12924398136843]]
[[7.907950710951821, 7.843773703968845, 7.631687563651485, -100], [7.129077482842031, 7.810909329377152, 7.638262398298541, 7.281050825550765], [7.548970304998321, 7.289425820272084, 7.247625600797361, 7.260624668805574], [-100, 6.888135342166283, 7.154947720361157, -100], [6.160486531216797, 7.214461332923804, -100, -100], [6.9764697490594285, 8.490406614178003, 6.948269241835464, 6.947796748890014]]
[[8.588306094862464, 8.582343691515673, 8.59951772651972, -100], [8.778401001405253, 8.850984184640001, 8.678719730381427, 8.82272455460417], [8.049736168344822, 7.97524740913002, 7.964590642340806, 8.037643135115415], [-100, 7.884773416702429, 7.95820728195736, -100], [7.452694732402675, 7.768883514962651, -100, -100], [7.565961173939572, 7.522650763063116, 7.569823513645105, 7.458338068065783]]
[[10.843163978642025, 10.874612368804629, 10.640776068173537, -100], [11.992442659094293, 12.065046487001773, 12.371407759118163, 12.227376084450857], [10.086060382315525, 10.48696693008013, 10.63286922157809, 10.44556244714515], [-100, 10.99912755279636, 10.956738998211137, -100], [10.9652750623018, 11.448593985144951, -100, -100], [11.51311336799651, 9.50311253291029, 11.50666070966459, 11.72760399036461]]
[[11.899994066574813, 11.935064110735278, 11.942164559607434, -100], [13.469830989154392, 13.618790091744144, 13.567127631981656, 13.510144283287582], [11.618506415709447, 11.66900621016246, 11.24624373129029, 11.275181029280414], [-100, 12.063074043369465, 11.967497282819402, -100], [12.19036818126348, 12.4019702605711, -100, -100], [12.298751781746718, 12.384760953392885, 12.44979374309126, 12.327044809492431]]
[[-4.254821566319245, -6.577358093753865, -4.670982803353963, -100], [0.0958291914789581, -0.0683220814153947, -0.6915323825239118, -0.7490075844343679], [-0.7786169618659662, -1.464265417872741, -0.0094776277273878, -2.222570167476504], [-100, 2.572137883831496, 6.989457951802857, -100], [-1.7908240068464327, -3.0346801596491813, -100, -100], [-0.6462460004756462, 13.11346638058934, -2.3383486281915142, -1.1325263581337364]]
[[-3.958454322934591, -5.074402801870328, -3.76006797019974, -100], [-0.5335915782748561, -0.8551573134169094, -0.5962556423462212, -1.3103819488313022], [-0.1765591140429531, -0.1690887168825523, -0.9913636312482512, 0.1498274918613771], [-100, -0.0570756403278655, 4.142685856847653, -100], [-1.899860201989412, -2.745917236367505, -100, -100], [-0.2300002150227979, -0.9599232843254364, 0.5471777663632511, -2.1454139832601533]]
[[67.68043139343541, 67.51192950187651, 64.10906141748492, -100], [66.45528870474881, 73.68810861718586, 73.90549406140528, 69.40567255226951], [59.92768078307679, 60.228813886890336, 60.62168402306773, 59.91566547643056], [-100, 59.71785704128032, 61.9692210118123, -100], [53.01001344464832, 64.7179719462451, -100, -100], [62.953113761654, 64.82356608772385, 62.99080203229852, 63.92581015491735]]
[[80.31287669419582, 80.7684228622334, 80.77416179502649, -100], [92.72412473358578, 94.58771243953994, 92.66689980123054, 93.57146821082088], [73.61777268131331, 72.98017043131877, 70.59364812603286, 71.2682278628924], [-100, 74.7323749938961, 75.00564528070014, -100], [70.77995321551784, 74.85780653908817, -100, -100], [72.95826654799964, 73.12988138337275, 73.89480466120321, 72.12924398136843]]
[[7.907950710951821, 7.843773703968845, 7.631687563651485, -100], [7.129077482842031, 7.810909329377152, 7.638262398298541, 7.281050825550765], [7.548970304998321, 7.289425820272084, 7.247625600797361, 7.260624668805574], [-100, 6.888135342166283, 7.154947720361157, -100], [6.160486531216797, 7.214461332923804, -100, -100], [6.9764697490594285, 8.490406614178003, 6.948269241835464, 6.947796748890014]]
[[8.588306094862464, 8.582343691515673, 8.59951772651972, -100], [8.778401001405253, 8.850984184640001, 8.678719730381427, 8.82272455460417], [8.049736168344822, 7.97524740913002, 7.964590642340806, 8.037643135115415], [-100, 7.884773416702429, 7.95820728195736, -100], [7.452694732402675, 7.768883514962651, -100, -100], [7.565961173939572, 7.522650763063116, 7.569823513645105, 7.458338068065783]]
[[10.843163978642025, 10.874612368804629, 10.640776068173537, -100], [11.992442659094293, 12.065046487001773, 12.371407759118163, 12.227376084450857], [10.086060382315525, 10.48696693008013, 10.63286922157809, 10.44556244714515], [-100, 10.99912755279636, 10.956738998211137, -100], [10.9652750623018, 11.448593985144951, -100, -100], [11.51311336799651, 9.50311253291029, 11.50666070966459, 11.72760399036461]]
[[11.899994066574813, 11.935064110735278, 11.942164559607434, -100], [13.469830989154392, 13.618790091744144, 13.567127631981656, 13.510144283287582], [11.618506415709447, 11.66900621016246, 11.24624373129029, 11.275181029280414], [-100, 12.063074043369465, 11.967497282819402, -100], [12.19036818126348, 12.4019702605711, -100, -100], [12.298751781746718, 12.384760953392885, 12.44979374309126, 12.327044809492431]]
[[-4.254821566319245, -6.577358093753865, -4.670982803353963, -100], [0.0958291914789581, -0.0683220814153947, -0.6915323825239118, -0.7490075844343679], [-0.7786169618659662, -1.464265417872741, -0.0094776277273878, -2.222570167476504], [-100, 2.572137883831496, 6.989457951802857, -100], [-1.7908240068464327, -3.0346801596491813, -100, -100], [-0.6462460004756462, 13.11346638058934, -2.3383486281915142, -1.1325263581337364]]
[[-3.958454322934591, -5.074402801870328, -3.76006797019974, -100], [-0.5335915782748561, -0.8551573134169094, -0.5962556423462212, -1.3103819488313022], [-0.1765591140429531, -0.1690887168825523, -0.9913636312482512, 0.1498274918613771], [-100, -0.0570756403278655, 4.142685856847653, -100], [-1.899860201989412, -2.745917236367505, -100, -100], [-0.2300002150227979, -0.9599232843254364, 0.5471777663632511, -2.1454139832601533]]
[[  67.68043139   67.5119295    64.10906142 -100.        ]
 [  66.4552887    73.68810862   73.90549406   69.40567255]
 [  59.92768078   60.22881389   60.62168402   59.91566548]
 [-100.           59.71785704   61.96922101 -100.        ]
 [  53.01001344   64.71797195 -100.         -100.        ]
 [  62.95311376   64.82356609   62.99080203   63.92581015]
 [  80.31287669   80.76842286   80.7741618  -100.        ]
 [  92.72412473   94.58771244   92.6668998    93.57146821]
 [  73.61777268   72.98017043   70.59364813   71.26822786]
 [-100.           74.73237499   75.00564528 -100.        ]
 [  70.77995322   74.85780654 -100.         -100.        ]
 [  72.95826655   73.12988138   73.89480466   72.12924398]]
[[  67.68043139   67.5119295    64.10906142 -100.        ]
 [  66.4552887    73.68810862   73.90549406   69.40567255]
 [  59.92768078   60.22881389   60.62168402   59.91566548]
 [-100.           59.71785704   61.96922101 -100.        ]
 [  53.01001344   64.71797195 -100.         -100.        ]
 [  62.95311376   64.82356609   62.99080203   63.92581015]
 [  80.31287669   80.76842286   80.7741618  -100.        ]
 [  92.72412473   94.58771244   92.6668998    93.57146821]
 [  73.61777268   72.98017043   70.59364813   71.26822786]
 [-100.           74.73237499   75.00564528 -100.        ]
 [  70.77995322   74.85780654 -100.         -100.        ]
 [  72.95826655   73.12988138   73.89480466   72.12924398]]
[[   7.90795071    7.8437737     7.63168756 -100.        ]
 [   7.12907748    7.81090933    7.6382624     7.28105083]
 [   7.5489703     7.28942582    7.2476256     7.26062467]
 [-100.            6.88813534    7.15494772 -100.        ]
 [   6.16048653    7.21446133 -100.         -100.        ]
 [   6.97646975    8.49040661    6.94826924    6.94779675]
 [   8.58830609    8.58234369    8.59951773 -100.        ]
 [   8.778401      8.85098418    8.67871973    8.82272455]
 [   8.04973617    7.97524741    7.96459064    8.03764314]
 [-100.            7.88477342    7.95820728 -100.        ]
 [   7.45269473    7.76888351 -100.         -100.        ]
 [   7.56596117    7.52265076    7.56982351    7.45833807]]
[[   7.90795071    7.8437737     7.63168756 -100.        ]
 [   7.12907748    7.81090933    7.6382624     7.28105083]
 [   7.5489703     7.28942582    7.2476256     7.26062467]
 [-100.            6.88813534    7.15494772 -100.        ]
 [   6.16048653    7.21446133 -100.         -100.        ]
 [   6.97646975    8.49040661    6.94826924    6.94779675]
 [   8.58830609    8.58234369    8.59951773 -100.        ]
 [   8.778401      8.85098418    8.67871973    8.82272455]
 [   8.04973617    7.97524741    7.96459064    8.03764314]
 [-100.            7.88477342    7.95820728 -100.        ]
 [   7.45269473    7.76888351 -100.         -100.        ]
 [   7.56596117    7.52265076    7.56982351    7.45833807]]
[[  10.84316398   10.87461237   10.64077607 -100.        ]
 [  11.99244266   12.06504649   12.37140776   12.22737608]
 [  10.08606038   10.48696693   10.63286922   10.44556245]
 [-100.           10.99912755   10.956739   -100.        ]
 [  10.96527506   11.44859399 -100.         -100.        ]
 [  11.51311337    9.50311253   11.50666071   11.72760399]
 [  11.89999407   11.93506411   11.94216456 -100.        ]
 [  13.46983099   13.61879009   13.56712763   13.51014428]
 [  11.61850642   11.66900621   11.24624373   11.27518103]
 [-100.           12.06307404   11.96749728 -100.        ]
 [  12.19036818   12.40197026 -100.         -100.        ]
 [  12.29875178   12.38476095   12.44979374   12.32704481]]
[[  10.84316398   10.87461237   10.64077607 -100.        ]
 [  11.99244266   12.06504649   12.37140776   12.22737608]
 [  10.08606038   10.48696693   10.63286922   10.44556245]
 [-100.           10.99912755   10.956739   -100.        ]
 [  10.96527506   11.44859399 -100.         -100.        ]
 [  11.51311337    9.50311253   11.50666071   11.72760399]
 [  11.89999407   11.93506411   11.94216456 -100.        ]
 [  13.46983099   13.61879009   13.56712763   13.51014428]
 [  11.61850642   11.66900621   11.24624373   11.27518103]
 [-100.           12.06307404   11.96749728 -100.        ]
 [  12.19036818   12.40197026 -100.         -100.        ]
 [  12.29875178   12.38476095   12.44979374   12.32704481]]
[[-4.25482157e+00 -6.57735809e+00 -4.67098280e+00 -1.00000000e+02]
 [ 9.58291915e-02 -6.83220814e-02 -6.91532383e-01 -7.49007584e-01]
 [-7.78616962e-01 -1.46426542e+00 -9.47762773e-03 -2.22257017e+00]
 [-1.00000000e+02  2.57213788e+00  6.98945795e+00 -1.00000000e+02]
 [-1.79082401e+00 -3.03468016e+00 -1.00000000e+02 -1.00000000e+02]
 [-6.46246000e-01  1.31134664e+01 -2.33834863e+00 -1.13252636e+00]
 [-3.95845432e+00 -5.07440280e+00 -3.76006797e+00 -1.00000000e+02]
 [-5.33591578e-01 -8.55157313e-01 -5.96255642e-01 -1.31038195e+00]
 [-1.76559114e-01 -1.69088717e-01 -9.91363631e-01  1.49827492e-01]
 [-1.00000000e+02 -5.70756403e-02  4.14268586e+00 -1.00000000e+02]
 [-1.89986020e+00 -2.74591724e+00 -1.00000000e+02 -1.00000000e+02]
 [-2.30000215e-01 -9.59923284e-01  5.47177766e-01 -2.14541398e+00]]
[[-4.25482157e+00 -6.57735809e+00 -4.67098280e+00 -1.00000000e+02]
 [ 9.58291915e-02 -6.83220814e-02 -6.91532383e-01 -7.49007584e-01]
 [-7.78616962e-01 -1.46426542e+00 -9.47762773e-03 -2.22257017e+00]
 [-1.00000000e+02  2.57213788e+00  6.98945795e+00 -1.00000000e+02]
 [-1.79082401e+00 -3.03468016e+00 -1.00000000e+02 -1.00000000e+02]
 [-6.46246000e-01  1.31134664e+01 -2.33834863e+00 -1.13252636e+00]
 [-3.95845432e+00 -5.07440280e+00 -3.76006797e+00 -1.00000000e+02]
 [-5.33591578e-01 -8.55157313e-01 -5.96255642e-01 -1.31038195e+00]
 [-1.76559114e-01 -1.69088717e-01 -9.91363631e-01  1.49827492e-01]
 [-1.00000000e+02 -5.70756403e-02  4.14268586e+00 -1.00000000e+02]
 [-1.89986020e+00 -2.74591724e+00 -1.00000000e+02 -1.00000000e+02]
 [-2.30000215e-01 -9.59923284e-01  5.47177766e-01 -2.14541398e+00]]
[[  67.68043139   67.5119295    64.10906142 -100.        ]
 [  66.4552887    73.68810862   73.90549406   69.40567255]
 [  59.92768078   60.22881389   60.62168402   59.91566548]
 [-100.           59.71785704   61.96922101 -100.        ]
 [  53.01001344   64.71797195 -100.         -100.        ]
 [  62.95311376   64.82356609   62.99080203   63.92581015]
 [  80.31287669   80.76842286   80.7741618  -100.        ]
 [  92.72412473   94.58771244   92.6668998    93.57146821]
 [  73.61777268   72.98017043   70.59364813   71.26822786]
 [-100.           74.73237499   75.00564528 -100.        ]
 [  70.77995322   74.85780654 -100.         -100.        ]
 [  72.95826655   73.12988138   73.89480466   72.12924398]]
[[  67.68043139   67.5119295    64.10906142 -100.        ]
 [  66.4552887    73.68810862   73.90549406   69.40567255]
 [  59.92768078   60.22881389   60.62168402   59.91566548]
 [-100.           59.71785704   61.96922101 -100.        ]
 [  53.01001344   64.71797195 -100.         -100.        ]
 [  62.95311376   64.82356609   62.99080203   63.92581015]
 [  80.31287669   80.76842286   80.7741618  -100.        ]
 [  92.72412473   94.58771244   92.6668998    93.57146821]
 [  73.61777268   72.98017043   70.59364813   71.26822786]
 [-100.           74.73237499   75.00564528 -100.        ]
 [  70.77995322   74.85780654 -100.         -100.        ]
 [  72.95826655   73.12988138   73.89480466   72.12924398]]

Gray matter cross-sectional area#

White matter qMRI#